Naama Menda nmenda
nmenda
/ gist:553837
Created
August 27, 2010 17:57
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| Catalyst::Action::RenderView uses NEXT, which is deprecated. Please see the Class::C3::Adopt::NEXT documentation for details. NEXT used at /usr/share/perl5/Catalyst/Action/RenderView.pm line 18 | |
| [info] *** Request 1 (0.010/s) [25819] [Fri Aug 27 13:04:05 2010] *** | |
| [debug] "GET" request for "sequencing/sol100.pl" from "192.168.3.1" | |
| [debug] Path is "sequencing/sol100.pl" | |
| [debug] Response Code: unknown; Content-Type: text/html; Content-Length: 136 | |
| [info] Request took 0.130901s (7.639/s) | |
| .------------------------------------------------------------+-----------. | |
| | Action | Time | | |
| +------------------------------------------------------------+-----------+ | |
| | /auto | 0.001136s | |
nmenda
/ gist:551951
Created
August 26, 2010 18:47
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| naama@virtual sgn (topic/catalyst %)$ ./bin/sgn_server.pl -d | |
| Catalyst::Plugin::Static::Simple uses NEXT, which is deprecated. Please see the Class::C3::Adopt::NEXT documentation for details. NEXT used at /usr/share/perl5/Catalyst/Plugin/Static/Simple.pm line 85 | |
| DBD::Pg 2.9.2 or greater is strongly recommended | |
| CXGN::VHost is deprecated, please remove this use. | |
| For most modules, all database connections, paths, etc that are now | |
| being read from CXGN::VHost should be passed in via mandatory | |
| arguments to new(), or similar. | |
| at /home/naama/cxgn/sgn/cgi-bin/insitu/index.pl line 23 | |
| Useless use of hash element in void context at /home/naama/cxgn/cxgn-corelibs/lib/CXGN/Secretary/Query.pm line 53. |
nmenda
/ gist:551940
Created
August 26, 2010 18:40
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| naama@virtual bin (topic/catalyst)$ perl sgn_server.pl | |
| Catalyst::Plugin::Static::Simple uses NEXT, which is deprecated. Please see the Class::C3::Adopt::NEXT documentation for details. NEXT used at /usr/share/perl5/Catalyst/Plugin/Static/Simple.pm line 85 | |
| DBD::Pg 2.9.2 or greater is strongly recommended | |
| CXGN::VHost is deprecated, please remove this use. | |
| For most modules, all database connections, paths, etc that are now | |
| being read from CXGN::VHost should be passed in via mandatory | |
| arguments to new(), or similar. | |
| at /home/naama/cxgn/sgn/cgi-bin/insitu/index.pl line 23 | |
| Useless use of hash element in void context at /home/naama/cxgn/cxgn-corelibs/lib/CXGN/Secretary/Query.pm line 53. |
nmenda
/ gist:540875
Created
August 20, 2010 18:33
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| naama@virtual sgn (master %)$ git status | |
| # On branch master | |
| # Your branch and 'origin/master' have diverged, | |
| # and have 1 and 1 different commit(s) each, respectively. | |
| # | |
| # Untracked files: | |
| # (use "git add <file>..." to include in what will be committed) | |
| # | |
| # Catalyst-View-HTML-Mason-0.01/ | |
| nothing added to commit but untracked files present (use "git add" to track) |
nmenda
/ apache2restart
Created
August 19, 2010 18:09
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| Starting web server: apache2Couldn't require SGN::Feature::ITAG : Can't locate CXGN/ITAG/Pipeline.pm in @INC (@INC contains: /home/naama/github/Bio-Chado-Schema/lib /home/naama/cxgn/Phenome/lib /home/naama/cxgn/Cview/lib /home/naama/cxgn/tomato_genome/lib /home/naama/cxgn/local-lib/lib/perl5 /home/naama/cxgn/local-lib/lib/perl5/i486-linux-gnu-thread-multi /home/naama/cxgn/cxgn-corelibs/lib /home/naama/cxgn/sgn/lib /etc/perl /usr/local/lib/perl/5.10.0 /usr/local/share/perl/5.10.0 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10 /usr/share/perl/5.10 /usr/local/lib/site_perl . /etc/apache2) at /home/naama/cxgn/sgn/lib/SGN/Feature/ITAG.pm line 6. | |
| BEGIN failed--compilation aborted at /home/naama/cxgn/sgn/lib/SGN/Feature/ITAG.pm line 6. | |
| Compilation failed in require at (eval 510) line 3. | |
| at /home/naama/cxgn/sgn/lib/SGN/Role/Site/SiteFeatures.pm line 29 | |
| WARNING: failed to configure SGN::Feature::ITAG : Can't locate object method "feature_name" via package "SGN::Feature::ITAG" at /home/naama/cxgn/sgn/lib/SGN/Role/ |
nmenda
/ cpanm build.log
Created
August 18, 2010 14:13
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| cpanm (App::cpanminus) 1.001 on perl 5.010000 built for i486-linux-gnu-thread-multi | |
| Work directory is /home/naama/.cpanm/work/1281932455.18073 | |
| You have make /usr/bin/make | |
| You have LWP 5.836 | |
| You have /bin/tar: tar (GNU tar) 1.20 | |
| Copyright (C) 2008 Free Software Foundation, Inc. | |
| License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html> | |
| This is free software: you are free to change and redistribute it. | |
| There is NO WARRANTY, to the extent permitted by law. |
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| CHISEL/Catalyst-Plugin-ErrorCatcher-0.0.7.tar.gz | |
| /usr/bin/make test -- NOT OK | |
| //hint// to see the cpan-testers results for installing this module, try: | |
| reports CHISEL/Catalyst-Plugin-ErrorCatcher-0.0.7.tar.gz | |
| Running make install | |
| make test had returned bad status, won't install without force |
nmenda
/ restart apache2
Created
August 17, 2010 19:41
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| Restarting web server: apache2Syntax error on line 14 of /etc/apache2/sites-enabled/sgn: | |
| Can't locate object method "add_method" via package "Moose::Meta::Role" at /home/naama/cxgn/local-lib/lib/perl5/Moose/Role.pm line 136.\nBEGIN failed--compilation aborted at /home/naama/cxgn/local-lib/lib/perl5/MooseX/Singleton/Role/Object.pm line 2.\nCompilation failed in require at /home/naama/cxgn/local-lib/lib/perl5/MooseX/Singleton.pm line 5.\nBEGIN failed--compilation aborted at /home/naama/cxgn/local-lib/lib/perl5/MooseX/Singleton.pm line 5.\nCompilation failed in require at /home/naama/cxgn/sgn/lib/SGN/Context.pm line 29.\nBEGIN failed--compilation aborted at /home/naama/cxgn/sgn/lib/SGN/Context.pm line 29.\nCompilation failed in require at /home/naama/cxgn/sgn/lib/CXGN/Apache/Registry.pm line 6.\nBEGIN failed--compilation aborted at /home/naama/cxgn/sgn/lib/CXGN/Apache/Registry.pm line 6.\nCompilation failed in require at /home/naama/cxgn/sgn/lib/SGN/Apache2/Startup.pm line 26.\nBEGIN failed--compilation aborted |
nmenda
/ MooseX::Declare
Created
August 17, 2010 17:06
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| cpanm (App::cpanminus) 1.001 on perl 5.010000 built for i486-linux-gnu-thread-multi | |
| Work directory is /home/naama/.cpanm/work/1281864193.16218 | |
| You have make /usr/bin/make | |
| You have LWP 5.834 | |
| You have /bin/tar: tar (GNU tar) 1.20 | |
| Copyright (C) 2008 Free Software Foundation, Inc. | |
| License GPLv3+: GNU GPL version 3 or later <http://gnu.org/licenses/gpl.html> | |
| This is free software: you are free to change and redistribute it. | |
| There is NO WARRANTY, to the extent permitted by law. |
nmenda
/ sgn_update
Created
July 13, 2010 15:49
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| Stashing work in sgn | |
| Saved working directory and index state WIP on master: 1e2d1fd fixed #1113 . Loading new accessions works now | |
| HEAD is now at 1e2d1fd fixed #1113 . Loading new accessions works now | |
| Rebasing master branch of sgn from origin | |
| Already on 'master' | |
| Your branch is ahead of 'origin/master' by 1 commit. | |
| From github.com:solgenomics/sgn | |
| * branch master -> FETCH_HEAD | |
| It seems that I cannot create a rebase-apply directory, and |